B. Purushothaman et al. / European Journal of Medicinal Chemistry 156 (2018) 747e759
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grade solvents were purchased from Alfa Aesar or Sigma Aldrich
South Korea, and degassed with 100% dry nitrogen for 20 min
before use for the reactions. Deionized water was used for the
preparation of sodium chlorate solution. For column purification
acetonitrile and toluene commercial grade solvents were used and
purchased from Daejung Chemicals, South Korea. 1H and 13C NMR
spectra were recorded in deuterated methanol, chloroform or
dimethyl sulfoxide (Cambridge Isotope Labs), containing 0.05% v/v
TMS as an internal standard, using Bruker AVANCE400 and
AVANCE600 spectrometer. The abbreviations for the peak multi-
plicities are as follows: s (singlet), d (doublet), dd (doublet of
doublets), t (triplet), q (quartet), m (multiplet), and br (broad).
Chemical shifts are reported in values (ppm) relative to internal
TMS, and J values are reported in Hz. High resolution Mass spec-
troscopy data was obtained with an Agilent 6530 Q-TOF LC-MS
spectrometer. MALDI-TOF mass spectrum was obtained with
MALDI TOF-TOF 5800 System (AB SCIEX, USA). The column chro-
matography was carried out in Silica gel (Merck, silica gel 60, par-
ticle size 0.063e0.200 mm, 70e230 mesh ASTM) or neutral
alumina (Alfa Aesar, 60 mesh, Brockmann grade 1, 58 Aꢀ) with
mentioned commercial grade solvents as mobile phase. The prog-
ress of all reactions was monitored by thin layer chromatography
(TLC), which was performed on 2.0 ꢂ 4.0 cm2 aluminum sheets
precoated with silica gel 60 (HF-254, Merck) to a thickness of
0.25 mm. The developed chromatograms were viewed under ul-
traviolet light (254 and 365 nm). All the compounds including in-
termediates were detected with 254 nm UV light. Absorption
spectra were recorded in 1 cm quartz cuvettes using Evolution™ 60
UV-Visible Spectrophotometer (Thermo Fischer Scientific, USA).
group, -CH2 carbon), 110.8 (tpy, CH), 111.4 (Pyrazole, -CH carbon),
121.0 (N,N-diethylaniline ring Ar CH), 121.2 (tpy, CH), 123.8 (tpy,
CH), 131.6 (tpy, CH), 136.9 (N,N-diethylaniline ring Ar CH), 137.9
(tpy, CH), 144.0 (N,N-diethylaniline group, -C-N carbon), 149.2
(Pyrazole, -C¼N carbon), 151.7 (tpy, C¼N), 152.5 (Pyrazole, -C-N
carbon), 155.4 (tpy, C-N) 156.3 (tpy, C¼N), 164.0 (tpy, C-N), 164.2
(triazine C¼N), 174.1 (triazine N¼C-N). MALDI-TOF mass spectra:
752.07 (C38H39N11Ru), HRMS (ESI): Calcd for C38H39N11Ru:
750.8770, found: 750.8780. UV-Visible spectrum (CH3CN): lmax
396 nm and 515 nm.
4.3. Molecular docking
Molecular docking of complex 1 into the three-dimensional X-
ray crystal structure of GRP78 (PDB: 3ldl) was carried out using
Accelrys Discovery Studio (v 4.0) as implemented through the
graphical user interface DS-CDOCKER protocol. The 3D structure of
complex 1 was constructed using Discovery studio small molecule
window and energy was minimized by CHARMm force field with
and minimum RMS gradient of 0.09. The three-dimensional crystal
structure of GRP78 (PDB: 3ldl) was retrieved from the RCSB Protein
simulated annealing procedure to explore the binding possibilities
of a ligand in a binding pocket. Before the docking procedure, all
bound water molecules and ATP molecules as heteroatoms were
removed from the protein crystal structure. The homodimer
structure of GRP 78 was taken to dock the drug molecule (complex
1). Binding site uses a CHARMm-based molecular dynamics scheme
to seek for the optimal binding sites for docking. Then, the optimal
binding site was chosen based on the shape and location of the
cavity, the location of the residue and the conserved amino acid.
Among the nine potential binding sites, the site 1 was chosen for
docking study. A site sphere radius was set to assign the entire
binding pocket where the other parameters were set as default. The
docking program CDOCKER was used to perform the automated
molecular simulation where the Top hits was set as 10, the Random
Conformations was set as 10. The top compounds were ranked by
the corresponding values of -CDOCKER energy, -CDOCKER inter-
action energy and all the values were preserved to find the most
probable binding mode.
Emission spectra were obtained on
a
Jasco-FP 6500
spectrofluorometer.
4.2. Synthesis and characteristics
4.2.1. Synthesis of ruthenium(II) complex 1: [Ru(bdpta)(tpy)](ClO4)2
The mixture of 2,2':60,200-terpyridine (iii) (300 mg, 1.29 mmol)
and RuCl3$3H2O (0.336 g, 1.29 mmol) in anhydrous ethanol (80 ml)
were refluxed at 80 ꢀC for 3 h. The excess ethanol was concentrated
by rotary evaporator to get the red solid which was washed with
diethyl ether and hexane. The red solid of [Ru (tpy)Cl3] was ob-
tained and dried, it was used for the next step of the synthesis
without further spectral analysis. 400 mg (0.85 mmol) of [Ru (tpy)
Cl3], 25 ml of dry ethylene glycol and 354 mg of bdpta ligand
(0.9 mmol) were added and refluxed at 170 ꢀC for 16 h under N2
atmosphere. The reaction mixture was then cooled to room tem-
perature and 1 M of NaClO4 was added. The reddish brown solid
was filtered and dissolved in dichloromethane. Dried over Na2SO4.
Then the solvent was evaporated on the rotary evaporator. The
crude ruthenium complex was purified twice by column chroma-
tography on neutral alumina (CH3CN/Toluene, 40/60, v/v). The dark
reddish brown colour band was collected and sat. NaClO4 was
added, then the solvents were distilled to get product as perchlo-
rate salt. The brown colour solid was then washed with diethyl
ether, hexane and dried under vacuum. Yield: 400 mg, 51.4%. Rf
4.4. Maintenance of cell culture
Breast cancer cell line MCF-7 and colon cancer cell line HCT-116
was obtained from the Korean Cell Line Bank (KCLB, Seoul, Korea).
Dulbecco's modified Eagle's medium (DMEM; Gibco-BRL, Grand
Island, NY) supplemented with 10% heat-inactivated fetal bovine
serum (FBS; GibcoBRL, Grand Island, NY), 10
mg/mL streptomycin,
100 U/mL penicillin, and 5 g/mL neomycin (PSN; 15,640e055,
m
Gibco-BRL) was used to culture both MCF-7 and HCT-116 cell line.
Cell cultures were maintained at 37 ꢀC in a humidified atmosphere
containing 5% CO2.
4.5. Isolation of CSC from the MCF-7 and HCT-116 cell line
value: 0.3 (CH3OH: CH2Cl2, 20:80). 1H NMR (400 MHz, CD3OD)
d/
ppm: 10.38e10.31 (m, 1H, tpy), 8.84 (dd, 1H, tpy), 8.69 (dd, J ¼ 8.2,
1.4 Hz, 1H, tpy), 8.43e8.36 (m, 2H, aniline ring Ar proton),
8.35e8.25 (m, 2H, tpy), 7.98 (t, J ¼ 7.9 Hz, 1H, tpy), 7.89 (ddd, J ¼ 7.1,
5.7, 1.3 Hz, 1H, tpy), 7.66 (td, J ¼ 7.7, 1.8 Hz, 1H, tpy), 7.20e7.10 (m,
2H, tpy), 6.97e6.89 (m, 2H, N,N-diethylaniline ring Ar proton), 6.52
(dd, J ¼ 7.7, 1.1 Hz, 1H, tpy), 6.31 (s, 2H, pyrazole CH proton), 3.61 (q,
J ¼ 7.1 Hz, 4H, alkyl CH2), 3.34 (s, 6H, pyrazole ring 2-CH3), 3.07 (s,
6H, pyrazole ring 2-CH3), 1.34e1.21 (m, 6H, alkyl -CH3). 13C NMR
Cancer stem cell marker CD44 was used to sort out CSC from
MCF-7 cell line. Similarly, CD133 marker was used to isolate CSC
from HCT-116 cell line. CSCs from cell lines were sorted by using
CD44 and CD133 microbead kit (MACS Miltenyi Biotec) as described
previously [67]. Briefly, MCF-7 and HCT-116 cells were detached
from the cell culture by using Accutase cell dissociation reagent.
Cells were centrifuged at 230 rcf for 3 min and supernatant was
discorded. Then, cells were resuspended in a mixture containing
(600 MHz, DMSO‑d6):
(N,N-diethylaniline group, -CH3 carbon), 16.1 (N,N-diethylaniline
d
/ppm: 12.6 (pyrazole, -CH3 carbon), 14.0
80
mL of sorting buffer and 20 mL of microbead solution provided in
the kit and incubated for 15 min at 4 ꢀC. Followed by the incubation,